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Marshall University
1700 3rd Avenue
Marshall University BBSC 336F
Huntington, WV 25755
United Stateshttps://jcesom.marshall.edu/research/office-of-research-and-graduate-education/core-facilities/genomics/Don Primerano
Last Updated: 07/05/2021
GM103434, GM121299, GM104942
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The MU Genomics Core Facility provides Next Generation Sequencing (NGS) services to investigators at universities, and in government and industry. The Genomics Core is equipped with an Illumina NextSeq 2000 sequencer with the capability to perform whole genome sequencing, whole exome sequencing, transcriptome expression profiling (RNA-Seq) and microbiome studies. The NextSeq2000 can generate 400 million paired end reads/run or 800 million total reads/run. In a 2 x100 paired end run, ~40 Gigabases can be sequenced. We have experience in RNA-Seq expression profiling, whole exome variant calling and microbiome studies.
Investigators must meet with Core Personnel prior to any experimentation or sample preparation either in person or by phone. At the initial meeting, Genomics Core staff and the investigator will define experimental design and objectives, technical issues (e.g. DNA/RNA quality and quantity, and library construction), probable sequence yields and outcomes, statistical and bioinformatic analyses and overall cost.
Investigators must provide input DNA or RNA which meets minimum quality and quantity requirements. The Genomics Core will prepare standard Illumina sequencing libraries (whole genome, whole exome, ChIP-Seq and RNA-Seq) based on established protocols. Libraries may also be prepared by the investigator. The Core will generate clusters and sequence the libraries according to the experimental design and perform data analyses as requested by the investigator (e.g. variant calling and transcriptome analysis).
If you are interested in developing a NGS project, please contact Don Primerano (primeran@marshall.edu) or Jim Denvir (denvir@marshall.edu).
Services are offerred outside of Marshall University
Consulting is offerred outside of Marshall University
Computational - Bioinformatics
Sequencing - Capillary Sequencing
Applied Biosystems 3130 Genetic Analyzer
The Applied Biosystems® 3130 (4-capillary) Genetic Analyzer is an electrophoresis device for the low to medium throughput laboratories that provides industry-leading performance and sophisticated automation capabilities. It can run a wide variety of sequencing and fragment analysis applications including microsatellite analysis, AFLP, LOH, SNP validation, and SNP screening. Maintenance time is reduced by eliminating manual syringe washing and filling with automated polymer delivery. The 3130 can increase your data quality for sequencing and fragment analysis applications – longer read length, and higher resolution with shorter run times. The 3130 can increase laboratory productivity and turnaround time by processing 96- or 384-well plates with a four-capillary array. [Product Link]
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2100 Bioanalyzer Instrument
The 2100 Bioanalyzer system is an automated electrophoresis tool that provides precise analytical evaluation of various samples types in many workflows, including next generation sequencing (NGS), gene expression, biopharmaceutical, and gene editing research. Digital data is provided in a timely manner and delivers objective assessment of sizing, quantitation, integrity and purity from DNA, RNA, and proteins. Minimal sample volumes are required for an accurate result, and the data may be exported in a many different formats for ease-of-use. [Product Link]
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Illumina NextSeq 1000 and NextSeq 2000 Sequencing Systems
Benchtop sequencers that allow you to explore new science across variety of current and emerging applications, with higher efficiency and fewer restraints. [Product Link]
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Molecular Devices Spectramax Plus384 Microplate Reader
Microplate reader that can read one sample or up to 384 in single plate read using any standard cuvette, 12 x 75 mm test tube, or 96 or 384 well microplate. It can run standard spectrophotometer and microplate reader applications. [Product Link]
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Thermo Fisher Qubit 2.0 Fluorometer Qubit 2.0
Invitrogen Qubit Flex Fluorometer can selectively, accurately measure the concentration of up to 8 samples of DNA, RNA or protein simultaneously. Compared to single sample microvolume fluorometers, using the Qubit Flex Fluorometer for multiple samples reduces your time to data by up to 50%, with time savings beginning with batches of as few as 8 samples. Combining the one-of-a-kind Qubit Flex Fluorometer and optimized Invitrogen Qubit reagents and tube strips offers a complete solution for DNA, RNA and protein quantification. [Product Link]
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Leica CM1950 Cryostat
The Leica CM1950 is a highly adaptable cryostat platform that can be tailor-made for each laboratory. By starting with the standard instrument and choosing from a range of options, every laboratory can have a clinical cryostat for their individual needs. Innovation and human-oriented features provide a cryostat with a new level of performance. The CM1950 is a high-performance cryostat with an encapsulated microtome and separate specimen cooling. It features a UV disinfection system, an (optional) integrated extraction system for section waste and an (optional) motor for motorized sectioning. The cryostat is designed to produce frozen sections for biological, medical and industrial applications. The CM1950 is suitable for in-vitro diagnostic (IVD) applications. [Product Link]
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Covaris ME220 Focused Ultrasonicator
Focused ultrasonicator with compact, easy to use system, formatted for 1 to 8 sample batch processing with integrated chiller and automated water management. [Product Link]
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The MU Genomics Core provides training and access to ABI Step One Plus Thermal Cyclers, SpectraMax Plate Reader, Protein Simple Wes System, Leica Cryostat, Qubit Fluorimeter and a Covaris Shearing Station. Please contact Robin Turner at 304-696-3720 for information about use of shared instruments.
Publications associated with this facility (Click To View):
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https://coremarketplace.org/?FacilityID=163Keywords:
USEDit, genomics, next generation sequencing, biostatistical and bioinformatic support, RNA-Seq, global chromatin and methylation studies
Resource Type:
Resource, service resource, core facility, access service resource
Citation:
Marshall University School of Medicine Genomics Core Facility (RRID:SCR_018885)
Facility Details
About This Facility
Services and Equipment
Publications
Associations
Metadata
